Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001743

Physical Location & Seq

Genomic Coordinates Reverse (-)

21291249 .. 21292268

Gene Structure 1020 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG116600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGTCATTGTCCAAGTTTTCGCTGTTTGATGATTTAAAAACTGTGTATATGGAGATGTTGGATTATAAGGTTTCCCCCAATTTGCATACATTTAACACTATGGTCAATGCTTATTGTAAATTGGGGAATTTGGCTGAGGCAGAGATGTATTTCAGTAAGATAGGGCAGGCCGGATTCCGGCCCGATATTTTTAGCTACGCGTCTTTGATACTGGGGCATTGTAGGAATAAGGATGTGGAAAGTGCTTATAGGGTGTTTAGGGTAATGCCGCAGAAGGAGTGTTGGAGAAATGAGGTTTCATATACAAATCTAATACATGGGTTGTGTGAGGCGGATCGGATTGGTGAGGCTTTTAAGTTGTTTTCGCAGATGGGGGAGGATAATTGTCAACCGACCATCCGCACGTTTACAGTTCTTATTTCTGCATTTTGTAGATTGGGGAAGAAGTCGGAACCAATGAAGTGTTTTAGACAGATGAGGGAAAACGGTTGTGAACCGAATGCTCATACTTATACTGTGCTCATTGATAGTGTGTGCAAGGAAAATAAGCTAGGTGAGGCTAGGAAGTTGCTGAATGAGATGTTGGAGAAACGGTTGGTTTCTACTGTAGTCATGTACAATGCGTTGATTGATGCATATTGCAAGGAGGGAGCAGTTGAGGCTGCAATTGATATTAAGGCTTTGATGGAACCAAATAAGTGTTGTCCAAATGCTCGAACACACAATGAATTAATTTTCGGGTTTTGTAAAAGGAAAGATGTAAACCAGGCAATGGCATTGCTCACTAAGATGCTCGATCTGAAGCTGTCACCTAGTGTGATTACGTGTAACTCATTAATACATGGCCAATGTAAATCAGGCGATTTCGACTGTGCTTATAGGTTGTTTGATTTGATGGACGGTGGTTTGGTTCCTGACCAGTGGACCTATAGTGTTTTTATAGACAGTCTTTGTAAGAGTGGGAGACCAGAAGAAGCTCATGCCCTGTTTGATTCTCTTAAGGAGAAAGGCGTAAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

339

Amino Acids

38.48

Weight (kDa)

7.43

Isoelectric Point (pI)

30.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	24 - 51	1.4e-07	PPR repeat
PPR_2	PF13041	26 - 75	1.1e-10	PPR repeat family
PPR	PF01535	30 - 58	3.4e-06	PPR repeat
PPR_1	PF12854	58 - 89	1.1e-07	PPR repeat
PPR_2	PF13041	61 - 109	4.5e-12	PPR repeat family
PPR_long	PF17177	77 - 148	2.7e-06	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	96 - 124	2.2e-08	PPR repeat
PPR_2	PF13041	97 - 145	2.6e-16	PPR repeat family
PPR	PF01535	99 - 129	2.5e-06	PPR repeat
PPR_3	PF13812	119 - 177	1.4e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	128 - 160	8.8e-06	PPR repeat
PPR	PF01535	135 - 164	1.8e-06	PPR repeat
PPR_2	PF13041	135 - 180	3.5e-14	PPR repeat family
PPR_1	PF12854	162 - 194	2.6e-11	PPR repeat
PPR	PF01535	170 - 198	3.5e-06	PPR repeat
PPR_3	PF13812	189 - 245	5e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	199 - 225	3.4e-06	PPR repeat
TPR_24	PF23276	200 - 296	2e-07	Fungal tetratrico peptide repeats
PPR_2	PF13041	202 - 250	1.8e-12	PPR repeat family
PPR_1	PF12854	234 - 264	3.7e-08	PPR repeat
PPR_2	PF13041	242 - 282	7.3e-08	PPR repeat family
PPR_1	PF12854	269 - 299	4.5e-08	PPR repeat
PPR_2	PF13041	271 - 319	6.5e-13	PPR repeat family
PPR_1	PF12854	302 - 332	1.8e-08	PPR repeat
PPR_2	PF13041	305 - 339	2.6e-06	PPR repeat family
PPR	PF01535	309 - 338	1.9e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0001743)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G77340 AT5G65560 AT5G65560 AT5G65560
fragaria_vesca	FvH4_1g06430 FvH4_2g11090 FvH4_2g11090 FvH4_2g11090 FvH4_2g11090 FvH4_2g11090 FvH4_7g04271 FvH4_7g04271
malus_domestica	MD03G1170600.v1.1 MD08G1245900.v1.1 MD11G1188000.v1.1 MD15G1441200.v1.1
prunus_persica	Prupe.1G583300_v2.0.a1 Prupe.4G256300_v2.0.a1
pyrus_communis	pycom03g12750 pycom08g21340 pycom15g38890 pycom15g38910
rosa_chinensis	RchiOBHm_Chr1g0329241 RchiOBHm_Chr2g0092171
rosa_laevigata	RLG00000016282 RLG00000029907
rosa_multiflora	Rmu_co8315275.1_g000001 Rmu_sc0000203.1_g000005 Rmu_sc0000524.1_g000014 Rmu_sc0010272.1_g000004 Rmu_sc0013552.1_g000009
rosa_roxburghii	Rroxscaffold_2G00149410 Rroxscaffold_4G00321300
rosa_rugosa	Rorug01G0077300 Rorug01G0077300 Rorug02G0023500
rosa_samantha	Rh1AG096400 Rh1BG077100 Rh1CG093100 Rh1CG107900 Rh1DG099700 Rh1DG116600 Rh2AG069100 Rh2BG068600 Rh2CG069700 Rh2DG067700
rosa_wichuraiana	Rw1G007460 Rw2G006310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	66
AccB7I	CCANNNNNTGG	1 cut(s)	772
AccII	CGCG	1 cut(s)	200
AciI	CCGC	3 cut(s)	269, 332, 400
AclWI	GGATC	1 cut(s)	342
AcoI	YGGCCR	1 cut(s)	844
AcsI	RAATTY	1 cut(s)	127
AcuI	CTGAAG	1 cut(s)	821
AdeI	CACNNNGTG	1 cut(s)	815
AfaI	GTAC	1 cut(s)	617
AfiI	CCNNNNNNNGG	2 cut(s)	177, 772
AflII	CTTAAG	1 cut(s)	998
AflIII	ACRYGT	2 cut(s)	198, 824
AjnI	CCWGG	1 cut(s)	765
AjuI	GAANNNNNNNTTGG	2 cut(s)	566, 598
AluBI	AGCT	4 cut(s)	195, 550, 805, 977
AluI	AGCT	4 cut(s)	195, 550, 805, 977
Alw21I	GWGCWC	1 cut(s)	522
Alw26I	GTCTC	1 cut(s)	958
AlwI	GGATC	1 cut(s)	342
AoxI	GGCC	3 cut(s)	168, 179, 844
ApeKI	GCWGC	1 cut(s)	662
ApoI	RAATTY	1 cut(s)	127
AseI	ATTAAT	2 cut(s)	731, 836
AspS9I	GGNCC	2 cut(s)	180, 924
AsuHPI	GGTGA	3 cut(s)	356, 566, 801
AvaII	GGWCC	1 cut(s)	924
BalI	TGGCCA	1 cut(s)	846
Bbv12I	GWGCWC	1 cut(s)	522
BbvCI	CCTCAGC	1 cut(s)	135
BbvI	GCAGC	1 cut(s)	649
BccI	CCATC	4 cut(s)	364, 404, 679, 889
BciT130I	CCWGG	1 cut(s)	767
BcoDI	GTCTC	1 cut(s)	958
BfaI	CTAG	3 cut(s)	551, 561, 813
BfmI	CTRYAG	2 cut(s)	606, 928
BfrI	CTTAAG	1 cut(s)	998
BisI	GCNGC	2 cut(s)	269, 663
BlsI	GCNGC	2 cut(s)	270, 664
Bme1390I	CCNGG	1 cut(s)	767
Bme18I	GGWCC	1 cut(s)	924
BmgT120I	GGNCC	2 cut(s)	180, 924
BmiI	GGNNCC	3 cut(s)	453, 690, 912
BmrFI	CCNGG	1 cut(s)	767
BmrI	ACTGGG	1 cut(s)	221
BmsI	GCATC	2 cut(s)	622, 780
BmuI	ACTGGG	1 cut(s)	221
Bpu10I	CCTNAGC	1 cut(s)	135
BsaAI	YACGTR	1 cut(s)	825
BsaI	GGTCTC	1 cut(s)	958
BsaXI	ACNNNNNCTCC	2 cut(s)	578, 608
Bsc4I	CCNNNNNNNGG	2 cut(s)	177, 772
Bse1I	ACTGG	2 cut(s)	216, 919
Bse3DI	GCAATG	2 cut(s)	776, 777
BseBI	CCWGG	1 cut(s)	767
BseGI	GGATG	2 cut(s)	238, 396
BseLI	CCNNNNNNNGG	2 cut(s)	177, 772
BseMI	GCAATG	2 cut(s)	776, 777
BseMII	CTCAG	1 cut(s)	126
BseNI	ACTGG	2 cut(s)	216, 919
BseXI	GCAGC	1 cut(s)	649
Bsh1236I	CGCG	1 cut(s)	200
BshFI	GGCC	3 cut(s)	170, 181, 846
BsiHKAI	GWGCWC	1 cut(s)	522
BsiSI	CCGG	2 cut(s)	171, 178
BslI	CCNNNNNNNGG	2 cut(s)	177, 772
BsmAI	GTCTC	1 cut(s)	958
BsmI	GAATGC	1 cut(s)	505
BsnI	GGCC	3 cut(s)	170, 181, 846
Bso31I	GGTCTC	1 cut(s)	958
Bsp1286I	GDGCHC	1 cut(s)	522
Bsp1407I	TGTACA	1 cut(s)	615
Bsp143I	GATC	2 cut(s)	334, 796
BspACI	CCGC	3 cut(s)	269, 332, 400
BspANI	GGCC	3 cut(s)	170, 181, 846
BspCNI	CTCAG	1 cut(s)	127
BspFNI	CGCG	1 cut(s)	200
BspLI	GGNNCC	3 cut(s)	453, 690, 912
BspPI	GGATC	1 cut(s)	342
BspTI	CTTAAG	1 cut(s)	998
BspTNI	GGTCTC	1 cut(s)	958
BsrDI	GCAATG	2 cut(s)	776, 777
BsrGI	TGTACA	1 cut(s)	615
BsrI	ACTGG	2 cut(s)	216, 919
BssMI	GATC	2 cut(s)	334, 796
Bst2UI	CCWGG	1 cut(s)	767
Bst4CI	ACNGT	9 cut(s)	43, 412, 488, 517, 594, 607, 872, 902, 947
BstAFI	CTTAAG	1 cut(s)	998
BstAUI	TGTACA	1 cut(s)	615
BstBAI	YACGTR	1 cut(s)	825
BstC8I	GCNNGC	1 cut(s)	168
BstDEI	CTNAG	2 cut(s)	135, 786
BstF5I	GGATG	2 cut(s)	238, 396
BstFNI	CGCG	1 cut(s)	200
BstKTI	GATC	2 cut(s)	337, 799
BstMAI	GTCTC	1 cut(s)	958
BstMBI	GATC	2 cut(s)	334, 796
BstMWI	GCNNNNNNNGC	1 cut(s)	659
BstNI	CCWGG	1 cut(s)	767
BstSCI	CCNGG	1 cut(s)	765
BstSFI	CTRYAG	2 cut(s)	606, 928
BstUI	CGCG	1 cut(s)	200
BstV1I	GCAGC	1 cut(s)	649
BsuRI	GGCC	3 cut(s)	170, 181, 846
BtsCI	GGATG	2 cut(s)	238, 396
BtsIMutI	CAGTG	1 cut(s)	926
Cac8I	GCNNGC	1 cut(s)	168
Cfr13I	GGNCC	2 cut(s)	180, 924
CseI	GACGC	1 cut(s)	189
Csp6I	GTAC	1 cut(s)	616
CviAII	CATG	4 cut(s)	317, 613, 842, 980
CviQI	GTAC	1 cut(s)	616
DdeI	CTNAG	2 cut(s)	135, 786
DpnI	GATC	2 cut(s)	336, 798
DpnII	GATC	2 cut(s)	334, 796
DraI	TTTAAA	1 cut(s)	36
DraIII	CACNNNGTG	1 cut(s)	815
EaeI	YGGCCR	1 cut(s)	844
EciI	GGCGGA	1 cut(s)	347
Eco31I	GGTCTC	1 cut(s)	958
Eco47I	GGWCC	1 cut(s)	924
Eco57I	CTGAAG	1 cut(s)	821
EcoRII	CCWGG	1 cut(s)	765
EcoT22I	ATGCAT	1 cut(s)	637
FaeI	CATG	4 cut(s)	320, 616, 845, 983
FatI	CATG	4 cut(s)	316, 612, 841, 979
Fnu4HI	GCNGC	2 cut(s)	269, 663
FokI	GGATG	2 cut(s)	245, 383
Fsp4HI	GCNGC	2 cut(s)	269, 663
FspBI	CTAG	3 cut(s)	551, 561, 813
GluI	GCNGC	2 cut(s)	269, 663
HaeIII	GGCC	3 cut(s)	170, 181, 846
HapII	CCGG	2 cut(s)	171, 178
HgaI	GACGC	1 cut(s)	189
Hin1II	CATG	4 cut(s)	320, 616, 845, 983
HincII	GTYRAC	1 cut(s)	389
HindII	GTYRAC	1 cut(s)	389
HinfI	GANTC	2 cut(s)	174, 992
HpaII	CCGG	2 cut(s)	171, 178
HphI	GGTGA	3 cut(s)	356, 566, 801
Hpy166II	GTNNAC	5 cut(s)	389, 408, 494, 763, 924
Hpy188I	TCNGA	3 cut(s)	339, 451, 801
Hpy188III	TCNNGA	1 cut(s)	914
Hpy8I	GTNNAC	5 cut(s)	389, 408, 494, 763, 924
HpyAV	CCTTC	1 cut(s)	268
HpyCH4III	ACNGT	9 cut(s)	43, 412, 488, 517, 594, 607, 872, 902, 947
HpyCH4IV	ACGT	2 cut(s)	404, 824
HpyCH4V	TGCA	6 cut(s)	85, 425, 537, 635, 642, 665
HpyF10VI	GCNNNNNNNGC	1 cut(s)	659
HpyF3I	CTNAG	2 cut(s)	135, 786
HpySE526I	ACGT	2 cut(s)	404, 824
Hsp92II	CATG	4 cut(s)	320, 616, 845, 983
Kzo9I	GATC	2 cut(s)	334, 796
LmnI	GCTCC	1 cut(s)	650
Lsp1109I	GCAGC	1 cut(s)	649
LweI	GCATC	2 cut(s)	622, 780
MaeI	CTAG	3 cut(s)	551, 561, 813
MaeII	ACGT	2 cut(s)	404, 824
MaeIII	GTNAC	2 cut(s)	807, 827
MalI	GATC	2 cut(s)	336, 798
MboI	GATC	2 cut(s)	334, 796
MboII	GAAGA	2 cut(s)	454, 983
MfeI	CAATTG	1 cut(s)	666
MhlI	GDGCHC	1 cut(s)	522
MlsI	TGGCCA	1 cut(s)	846
MluCI	AATT	7 cut(s)	79, 119, 127, 382, 666, 728, 732
MluI	ACGCGT	1 cut(s)	198
MluNI	TGGCCA	1 cut(s)	846
MmeI	TCCRAC	4 cut(s)	39, 263, 429, 564
MnlI	CCTC	9 cut(s)	130, 286, 322, 340, 370, 471, 550, 640, 652
Mox20I	TGGCCA	1 cut(s)	846
Mph1103I	ATGCAT	1 cut(s)	637
MscI	TGGCCA	1 cut(s)	846
MseI	TTAA	7 cut(s)	35, 93, 354, 675, 731, 836, 999
MslI	CAYNNNNRTG	1 cut(s)	788
Msp20I	TGGCCA	1 cut(s)	846
MspCI	CTTAAG	1 cut(s)	998
MspI	CCGG	2 cut(s)	171, 178
MspR9I	CCNGG	1 cut(s)	767
MunI	CAATTG	1 cut(s)	666
Mva1269I	GAATGC	1 cut(s)	505
MvaI	CCWGG	1 cut(s)	767
MvnI	CGCG	1 cut(s)	200
MwoI	GCNNNNNNNGC	1 cut(s)	659
NdeII	GATC	2 cut(s)	334, 796
NlaIII	CATG	4 cut(s)	320, 616, 845, 983
NlaIV	GGNNCC	3 cut(s)	453, 690, 912
NmuCI	GTSAC	1 cut(s)	807
NsiI	ATGCAT	1 cut(s)	637
PctI	GAATGC	1 cut(s)	505
PfeI	GAWTC	2 cut(s)	174, 992
PflMI	CCANNNNNTGG	1 cut(s)	772
PkrI	GCNGC	2 cut(s)	270, 664
Ppu21I	YACGTR	1 cut(s)	825
PshBI	ATTAAT	2 cut(s)	731, 836
PsiI	TTATAA	1 cut(s)	66
Psp6I	CCWGG	1 cut(s)	765
PspGI	CCWGG	1 cut(s)	765
PspN4I	GGNNCC	3 cut(s)	453, 690, 912
PspPI	GGNCC	2 cut(s)	180, 924
RsaI	GTAC	1 cut(s)	617
RsaNI	GTAC	1 cut(s)	616
RseI	CAYNNNNRTG	1 cut(s)	788
SaqAI	TTAA	7 cut(s)	35, 93, 354, 675, 731, 836, 999
SatI	GCNGC	2 cut(s)	269, 663
Sau3AI	GATC	2 cut(s)	334, 796
Sau96I	GGNCC	2 cut(s)	180, 924
ScrFI	CCNGG	1 cut(s)	767
SduI	GDGCHC	1 cut(s)	522
SfaNI	GCATC	2 cut(s)	622, 780
SfcI	CTRYAG	2 cut(s)	606, 928
SinI	GGWCC	1 cut(s)	924
SmiMI	CAYNNNNRTG	1 cut(s)	788
SmlI	CTYRAG	1 cut(s)	998
SmoI	CTYRAG	1 cut(s)	998
Sse9I	AATT	7 cut(s)	79, 119, 127, 382, 666, 728, 732
SsiI	CCGC	3 cut(s)	269, 332, 400
SspMI	CTAG	3 cut(s)	551, 561, 813
StyD4I	CCNGG	1 cut(s)	765
TaaI	ACNGT	9 cut(s)	43, 412, 488, 517, 594, 607, 872, 902, 947
TaiI	ACGT	2 cut(s)	407, 827
TaqI	TCGA	3 cut(s)	715, 795, 867
TasI	AATT	7 cut(s)	79, 119, 127, 382, 666, 728, 732
TatI	WGTACW	1 cut(s)	615
TauI	GCSGC	1 cut(s)	271
TfiI	GAWTC	2 cut(s)	174, 992
Tru1I	TTAA	7 cut(s)	35, 93, 354, 675, 731, 836, 999
Tru9I	TTAA	7 cut(s)	35, 93, 354, 675, 731, 836, 999
TscAI	CASTG	1 cut(s)	926
TseFI	GTSAC	1 cut(s)	807
TseI	GCWGC	1 cut(s)	662
Tsp45I	GTSAC	1 cut(s)	807
TspDTI	ATGAA	3 cut(s)	288, 473, 741
TspRI	CASTG	1 cut(s)	926
Van91I	CCANNNNNTGG	1 cut(s)	772
Vha464I	CTTAAG	1 cut(s)	998
VpaK11BI	GGWCC	1 cut(s)	924
VspI	ATTAAT	2 cut(s)	731, 836
XapI	RAATTY	1 cut(s)	127
XspI	CTAG	3 cut(s)	551, 561, 813
Zsp2I	ATGCAT	1 cut(s)	637

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.